Mercurial > repos > galaxy-australia > smudgeplot

comparison test-data/my_genome_warnings.txt @ 3:24e471d13fe9 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc commit cbe90253166d9908b68beb36b9488478178d225b
author iuc
date Thu, 30 Jun 2022 22:45:21 +0000
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2:e53b0473d575 3:24e471d13fe9
1
2 ######################
3 ## INPUT PROCESSING ##
4 ######################
5
6 #############
7 ## SUMMARY ##
8 #############
9 detecting two smudges at the same positions, not enough data for this number of bins lowering number of bins to 35
10 detecting two smudges at the same positions, not enough data for this number of bins lowering number of bins to 30
11 detecting two smudges at the same positions, not enough data for this number of bins lowering number of bins to 25
12 detecting two smudges at the same positions, not enough data for this number of bins lowering number of bins to 20
13 !! Warning, your coverage filter on the lower end (L = 23 ) is higher than half of the 1n coverage estimate ( 1n / 2 = 12.5
14 If the real 1n coverage is half of your estimate you would not picked it up due to the filtering.
15 If you have sufficient coverage, consider reruning the analysis with lower L (something like (1n / 2) - 5)
16 One good way for verificaiton would be to compare it to GenomeScope estimate of haploid coverage
17
18 ##########
19 ## PLOT ##
20 ##########